DmeINT0017600 @ dm6
Intron Retention
Gene
FBgn0259822 | Ca-beta
Description
NA
Coordinates
chr2L:11166027-11170873:-
Coord C1 exon
chr2L:11170368-11170873
Coord A exon
chr2L:11166144-11170367
Coord C2 exon
chr2L:11166027-11166143
Length
4224 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
TTTATTTTGAAAATTTCCAGGGT
3' ss Score
6
Exon sequences
Seq C1 exon
GGTCGCATATTCAGACGTCTCCACCGCGAACCGCTTGAAACTGCTCCACATTGCTTTGCCCAAGTGGATCACGCCCTCGGAACATAAATCCCATCAAGCATATAGATTCCAGCAGGATGGCGTTGCGTTCGTTCAAATCGCTGCCATGTGACGGACTCTAAGTCCCATAGCCACATTTGTGACCCAATTCGATGAGCAATTGTGTCTGTGTGCCTGTGTGTGTGTGTGTGTGTGCGGGGCTCTTGGCCATTTAACGATTAGTGGCCATAACGGCAAAGTGTTTGTTTATTTTGTTGTGCGACCGCAGAAACGATTCCAAAAATGATTGCATAATTGACTTTTGGCGGGGGGGTGTAGAAATCGCGCTAGACGCTCAGCATAAATTTCGGCTTGTGTTCCTATACCGTTTGTGATTCCAAAACAATTTGTGAGCCATGAAAAAGCTTCATCTGGGTGCCAAGCACAAGGGCAAGTCCTACAAGCCCTTTAGGAATAAGAATCGTCGG
Seq A exon
GTAAGTGAAAGTAATAGATCGGTTAGACATCCTAATCTTACCCCTTATTTTAATGTGCCCCCGGGCCCGGGCGGAATTCGTATATTTTTATCCACTCGATCGCTCGCAGACTGCTCGCCCAGCTTGTCAGGCTATTCACGACCATTTAAATACACACATACACGAAGTGAATACAGTGCGTACCAGAATGTAGTGCCAACGCGGCGGATGAGTGATTTTCCCAAGCGAAAGGGATGCGAGATTACTCATACGCCTAGTTTTTCTGGGCACGAAACTATAAAGCAAAGCAGTTGCATGGTTATAATGCAACATATGTTATACATTTATATTTATTGTAAGTGATGTGTAATTTATAGTAAGAACAGTCGCCTTGATAATAAACTAATTGGAGTAAAGTGGTTGTATTGTAAGAGGCTTCGTTTGTTTTTCACCTGCACTTCAATTAATTTCTTGTTATTTAATTATAATACTCACTGTATTTGTATGACAACGGTTGTTTTTAAATTTAAATTCTCTTAGTTCTCCCACAGACAATTTGGGGGCCAAAGAGGCTATCACACCTCTTACTCATCTTCGAAATCTGCATAGTTGTAAGCATAGTGAATGTTGATACTTTTGCGATACTCAGAAATCACTAATTTGTTGTTATGCGTTTGCAACTAGACTAAAAGAACTTTGCAAAATTCGTAAAAATATATGCTTAAGCATGTTTAAATGGAATATACATAAGTGTCTGTATAGTTATGCATTTTACATTAAAACATCGTTGTATACGATTAACTCGATATATTCTGAGTTATTTTAATTACCGAGACTAGTTTTTAAAAAATGTCTATTCAAGACCACTAAATTGCATTACTCTACATTACCCTAACTATTTATATATCTAATACGTTCATTGCAATTGGGAATCATGAATGTTATTTGAGCCTTTTGAAAACGCTGCAATGCCAAACGGCAGGTGAGGAGCAATTCGCTGACGCGCGGTCATCGACGGTGCCGGAAAAATGGGAAACATTCGGGCTGACCATGAAAATATTTGCCAAAGGGCTGAGGGGCAAAATTGCACTGGAATCCGAAAGCAGAGCGTTGACCCACCCGAAGAAAAAAACTATCCCACCGAGCGTTGGAAGTGGGTGGCTGTGGGTGGCGATGCGATGTCGATGACAACGAAAGTTCATTACTAGTTGTTGGGCACTTTGCCCGCTGCAAAGTATGATGGGACTTTTGGGCAATCGGCGAAAGGTAAACAAAGAATCGACCCGAGGTACACAAACAACACCCGACCCCCTCGCCCCACTTCAATTCAGCGATTAAAGGGGGATCCCCTTTTGTTTTACATATTGCCTTTTGGAAATGTGTAAACGCAAATTGAGACCATCGCCCGCGACCTTCCCCGTTAACGGTTAAATGGGGAGAGCCGGAGAAAGAGTGTGGAGAAGAATAAATGCCGACGCATGCGCGGAGCAAAAGTGGAGAATTGCTTTCTGCGCATGCTCCTCTGCTCTTTTGTTCTCTCAGCCTCCTACTCTCTCGCATCCTGTCACTTTAAGTGAGGAAATGGAAAACGGAATGTTTACGTTATGGCCACAGTGAGATACAAAATTGATATAAACCAAGTCGATATTGAAAGGCTTATTGAATGGGAATAAAACACTTTTCTTTCTAATTCTAATTTAACAAGTACTTTAAAGAGCTAAATAAAAAGTAGTTTATTAATGCCATTGTTTTTTGTATATACATATATAAAATTTCAACTATTACATTTGCTTTCCAAAACATTGATTATTTTTAGAATTGTTGAAAACATAATATTAAAGCAACAATTATTTTAAACATCTATCACATGAATAAATTTGTGATACTAAAACTACCAGCCTACATTGAACATTTTTAAAGTGGTTGTAAAGTGGATGTAAATTTTAAATGCCAATGCTACGATTAATTTAAAAAATATGTGTGTGCTTGAGAGACCTGCGACCAACAGCTGTAACCCTTTTCGTTTGGAGGTTTTGGCGCTCGCAGACAATTATCGGGGCTGCCAACAGGTGGACCGCCACTACCCCTTTGTCCCCCTTGCCCCCTTGAGAGTTGTGGGTGCTATCGATTTTCCAGGCACACCACTGACCGCCGATGACAGCGCGCTCATTTCGATGGAGATTTTGTGGGGGCGGATAGCTCCACGCCTCTCCCATTTTAGCACAAGCAACTCCAGTCGCACAGTGGGACGAGTATGCTGCATATGTACTTGAAAACCAATTTTGTTTACATTCACGGGCTGCTACTTATGATGGTGTGTGTGTGAGGGAATGTTCACACAAGCATATGTATAAATATATACATATACCCCGAAACGAGTGGAGCATTTACGCACTGGAAGGGAACGAGAAAACTCTACACAGTTTTCCCAGAGCGGAGCGGACTTTTCGCCTTCCAAATACAGAAACGATTCAGTTTGCGTGCGGAGTAGAACCGTTTGAATGTCGGAAAGGCGAATAGAAATCAAAGGATGTGAATCGAATGAAATCCTGTAAAAGTTAACCCGCGAATCGGTTGAGGATATAGCCAGGTCAAAGGGTTCGAAATCGGAAGAAGTCGGTTGGTTTTCGGAACAAAGGAAAATTGAAAAACACACCGCCACGTTCAACGGAAATCAGTTTTCGCGACCTATGTGTACCACCCCCTCTGCCCGAGTTTTCCAGCACATTTCGTGTGCATATACTAGAAAGGAAAAAAAAAGGTGATGTGAGCAGAGAACCGCGACCCGACGCCACTGACATAAATTCCTATTTTTAACTTCCCTGGGGCCAAAAATCCCCATCGATGCGGAATCAATTTCGATCCGATTCGCCAGTCGTATGCAAATTGTGCTAAAATTAAGACGACCAAGGGCTGCGGAAATCCCTTCCAGTTAACAATTTAAAGTTATTTCGCCTGTGGCTTCCAAACCGTTTGACAATCGCATCGCCTCTCTCTCTCTCGCTTGTTCCCTTTTTCTCTCTCTTGCTCTTTTGCTATCTCTCTCGCACACTTGGTAACGGTGTTTTTATGTCAGTGTCAAAATCGAACACCGTCTGACCCGATGGTTAAAATAGTTAAGCAAAGTATATTGCCAATGTCAGTGTTAATCATACAACAAAGTGCAACAATAAAGCTCTCAAAATCCTGCCAAATGAACGAAGTTAAAAGTTTAATATTCAATAGAAATTTTGTATATGCCTGATTACTCGAATCGTAGCGCTTTTATAGTCTTTTTACAAGCCCAAAACCAGTTGGTTTCATAAAGTGTTAAGTGTAGTTGTAACCAACTAAACCAGCCAACTCCAAACTCACCGAAACCGTATAGGAATAAAAGTAATCGTGGAATACGGATACGTAATCATTGCCAGCTCAACGCCTTGCCAGCCACCGTCACCATCACGTTCATTTCCACCACCACCAACTTCATCAGCATCGCACCATCTGGTGGTGCTGGTGGTGCTGTTGTCCTCGCACAGGATCGTCGGAAACATCGCCAAGATATCTTCGTTCGAGGAAGACTACCGGGCTGACAGGCCCATGGTGCAGCGCGCCTCTTCCTCGGATGCACCCTCCGTTCAGGGTGGCCAACATCGAGAGTCTCGATTTGGCCTTGGATACCCCTCCTACCAGAGTGGATACAACAAACTATTCACACAGGTGCCACAAACAATCAAACATCCAGGGGTGGGGGGGACCCTAATCCATGTTCTTTAATGCGATTTTCAGATGAATGTCACGGTTTTTGTAATCTTATCTATTCTAAAACATTCAATTTAAAGTCTGATTTGAAAATACCTCTTACTTAGAAAATAATACAAAACAAATTTGTTTTTGTTTGCCATATTCCATATAGGTTTTGTATTTTTTATACATACGAATTAGCATAAAACGAAACAAATTGTACATTATGTACATTAGTTATAATCGCATAAAATGAAAAATTACTCAGCATTCTCGGAGGCCATTATATCGGCCATGTACTTGCCACCAACTGTTGCTTCATGTGCGGCAAGAAGAAATATTGAAAACTATATACATTTTACTGCATTGTTTGGATATTTGAGTTGGGATGGGATTTTGGCAGCGGGCCAATTAAATTTGTTATGATTTTCAGATGGCCGGTCCAATTCATTTGTCTTTAAATCGGCACTTTTAAGGCAGATTAAAGTCTATTCTGATCCCATTTATTTTGAAAATTTCCAG
Seq C2 exon
GGTTCTGCCGACTCGAACTACTCACAACCGTCATCCGATCTGTCGCTAGACGAGGAAAAGGAATCGCTTCGGCGAGAAAAGGAACGTCAGGCCTTAAGCCAGTTGGATAAAGCGAGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0259822:FBtr0300536:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.875 A=NA C2=0.888
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PU(92.7=97.4)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0289392
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0289763, FBpp0297478, FBpp0310210
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)